2006
DOI: 10.1016/j.jmb.2006.08.076
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Evaluation of Energetic and Dynamic Coupling Networks in a PDZ Domain Protein

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Cited by 117 publications
(197 citation statements)
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“…A well-studied example for systems showing ligand-induced allostery are modular domains for protein-protein interactions denoted as PSD95/Discs large/ZO-1 (PDZ) domains. [11][12][13][14][15][16][17][18][19][20] These domains occur in a set of proteins typically associated with cell junctions and mediate the clustering of membrane ion channels by binding to their C-termini. [15][16][17] PDZ domains share a common fold which consists of two α-helices and six β -strands, with the second α-helix and the second β -strand forming the canonical binding groove ( Figure Figure 1).…”
Section: Introductionmentioning
confidence: 99%
“…A well-studied example for systems showing ligand-induced allostery are modular domains for protein-protein interactions denoted as PSD95/Discs large/ZO-1 (PDZ) domains. [11][12][13][14][15][16][17][18][19][20] These domains occur in a set of proteins typically associated with cell junctions and mediate the clustering of membrane ion channels by binding to their C-termini. [15][16][17] PDZ domains share a common fold which consists of two α-helices and six β -strands, with the second α-helix and the second β -strand forming the canonical binding groove ( Figure Figure 1).…”
Section: Introductionmentioning
confidence: 99%
“…More accurate modeling of side-chain conformational flexibility may also be important for structure-based drug design, when a target protein changes its binding site in response to binding different small molecules 11 . Work by Ranganathan and others [12][13][14][15][16][17][18] has provided intriguing evidence for the existence of "communication pathways" in proteins to facilitate the transmission of signals between allosteric and active sites. NMR experiments on several systems suggest that side-chains may play an important role in mediating this conformational coupling 19 .…”
Section: Introductionmentioning
confidence: 99%
“…Although the PDZ domain family has served as a prime model system for these studies, experimental data that detect intramolecular allosteric pathways are scarce and sometimes conflicting (16,20,21).…”
mentioning
confidence: 99%